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    Pcdh11x protocadherin 11 X-linked [ Mus musculus (house mouse) ]

    Gene ID: 245578, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Pcdh11xprovided by MGI
    Official Full Name
    protocadherin 11 X-linkedprovided by MGI
    Primary source
    MGI:MGI:2442849
    See related
    Ensembl:ENSMUSG00000034755 AllianceGenome:MGI:2442849
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    PCDHX; Pcdh11; PCDHX11
    Summary
    This gene encodes a member of the protocadherin family, and cadherin superfamily, of transmembrane proteins containing cadherin domains. The encoded protein may mediate cell-cell adhesion in neuronal tissues in the presence of calcium. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, Nov 2012]
    Expression
    Biased expression in CNS E18 (RPKM 1.6), whole brain E14.5 (RPKM 0.8) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Pcdh11x in Genome Data Viewer
    Location:
    X E2; X 49.58 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (119199954..119820319)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (120290238..120910622)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene predicted gene, 30577 Neighboring gene H2A.B variant histone 3 Neighboring gene STARR-seq mESC enhancer starr_47856 Neighboring gene gem (nuclear organelle) associated protein 8 pseudogene Neighboring gene STARR-seq mESC enhancer starr_47857 Neighboring gene STARR-seq mESC enhancer starr_47858 Neighboring gene STARR-seq mESC enhancer starr_47859 Neighboring gene STARR-seq mESC enhancer starr_47860 Neighboring gene phosphoribosyl pyrophosphate synthetase-associated protein 2 pseudogene Neighboring gene predicted gene, 22590

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Pcdh11x Negatively Regulates Dendritic Branching. Wu C, et al. J Mol Neurosci, 2015 Aug. PMID 25687328
    2. Cadherin expression delineates the divisions of the postnatal and adult mouse amygdala. Hertel N, et al. J Comp Neurol, 2012 Dec 1. PMID 22592879
    3. Non-clustered protocadherin. Kim SY, et al. Cell Adh Migr, 2011 Mar-Apr. PMID 21173574, Free PMC Article
    4. Cadherin expression in the somatosensory cortex: evidence for a combinatorial molecular code at the single-cell level. Krishna-K K, et al. Neuroscience, 2011 Feb 23. PMID 21129452
    5. A comparative analysis of the pig, mouse, and human PCDHX genes. Blanco-Arias P, et al. Mamm Genome, 2004 Apr. PMID 15112107

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Overexpression of wild-type Pcdh11x reduced dendritic complexity, whereas knockdown of Pcdh11x increased dendritic branching.
      Title: Pcdh11x Negatively Regulates Dendritic Branching.
    2. Pcdh11x decreased neural differentiation but increased the neural proliferation.
      Title: Protocadherin 11 x regulates differentiation and proliferation of neural stem cell in vitro and in vivo.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC141524

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in sperm head ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in sperm midpiece ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protocadherin-11 X-linked
    Names
    protocadherin X-linked 11

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001271809.2 → NP_001258738.1  protocadherin-11 X-linked isoform a precursor

      Status: REVIEWED

      Source sequence(s)
      AC115298, AC117258, BX005163, BX005240, BX005446
      UniProtKB/TrEMBL
      Q6KEQ5
      Conserved Domains (5) summary
      cd11304
      Location:253 → 351
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:384 → 464
      CA; Cadherin repeats
      pfam08374
      Location:775 → 977
      Protocadherin; Protocadherin
      pfam14650
      Location:1153 → 1229
      FAM75; FAM75 family
      cl09101
      Location:28 → 114
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    2. NM_001271810.2 → NP_001258739.1  protocadherin-11 X-linked isoform b precursor

      Status: REVIEWED

      Source sequence(s)
      AC115298, AC117258, BX005163, BX005240, BX005446
      Consensus CDS
      CCDS72426.1
      UniProtKB/TrEMBL
      B1AZR7, Q6KEQ5
      Related
      ENSMUSP00000108985.4, ENSMUST00000113358.10
      Conserved Domains (5) summary
      cd11304
      Location:253 → 351
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:384 → 464
      CA; Cadherin repeats
      pfam08374
      Location:775 → 977
      Protocadherin; Protocadherin
      pfam14650
      Location:1143 → 1219
      FAM75; FAM75 family
      cl09101
      Location:28 → 114
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    3. NM_001403634.1 → NP_001390563.1  protocadherin-11 X-linked isoform c precursor

      Status: REVIEWED

      Source sequence(s)
      AC115298, AC117258, BX005163, BX005240, BX005446, BX255884
      UniProtKB/TrEMBL
      F6ZNL5, Q6KEQ5
      Related
      ENSMUSP00000108991.5, ENSMUST00000113364.10

    4. NM_001403635.1 → NP_001390564.1  protocadherin-11 X-linked isoform c precursor

      Status: REVIEWED

      Source sequence(s)
      AC115298, AC117258, BX005163, BX005240, BX005446, BX255884
      UniProtKB/TrEMBL
      F6ZNL5, Q6KEQ5

    RNA

    1. NR_073451.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC115298, AC117258, BX005163, BX005240, BX005446

    2. NR_073452.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC115298, AC117258, BX005163, BX005240, BX005446

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000086.8 Reference GRCm39 C57BL/6J

      Range
      119199954..119820319
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006528392.5 → XP_006528455.1  protocadherin-11 X-linked isoform X6

      UniProtKB/TrEMBL
      A0A0A6YWK0
      Related
      ENSMUSP00000141581.2, ENSMUST00000193899.2
      Conserved Domains (4) summary
      cd11304
      Location:283 → 381
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:414 → 494
      CA; Cadherin repeats
      pfam08266
      Location:58 → 129
      Cadherin_2; Cadherin-like
      pfam08374
      Location:805 → 1007
      Protocadherin

    2. XM_006528388.4 → XP_006528451.1  protocadherin-11 X-linked isoform X3

      UniProtKB/TrEMBL
      Q6KEQ5
      Conserved Domains (5) summary
      cd11304
      Location:283 → 381
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:414 → 494
      CA; Cadherin repeats
      pfam08266
      Location:58 → 129
      Cadherin_2; Cadherin-like
      pfam08374
      Location:805 → 1007
      Protocadherin
      pfam14642
      Location:1182 → 1250
      FAM47; FAM47 family

    3. XM_006528389.5 → XP_006528452.1  protocadherin-11 X-linked isoform X4

      UniProtKB/TrEMBL
      Q6KEQ5
      Conserved Domains (5) summary
      cd11304
      Location:283 → 381
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:414 → 494
      CA; Cadherin repeats
      pfam08266
      Location:58 → 129
      Cadherin_2; Cadherin-like
      pfam08374
      Location:805 → 1007
      Protocadherin
      pfam14642
      Location:1174 → 1242
      FAM47; FAM47 family

    4. XM_006528387.5 → XP_006528450.1  protocadherin-11 X-linked isoform X2

      UniProtKB/TrEMBL
      Q6KEQ5
      Conserved Domains (5) summary
      cd11304
      Location:283 → 381
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:414 → 494
      CA; Cadherin repeats
      pfam08266
      Location:58 → 129
      Cadherin_2; Cadherin-like
      pfam08374
      Location:805 → 1007
      Protocadherin
      pfam14642
      Location:1184 → 1252
      FAM47; FAM47 family

    RNA

    1. XR_387045.5 RNA Sequence

    2. XR_387044.4 RNA Sequence

    3. XR_001782746.3 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001081385.1: Suppressed sequence

      Description
      NM_001081385.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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